# BioCypher ODM Import Schema Configuration with BioLink Model Integration

# Node types extracted from ODM generators mapped to BioLink classes
study:
  represented_as: node
  preferred_id: oid
  label_in_input: Study
  is_a: biolink:ClinicalTrial
  properties:
    OID: str
    Name: str
    Description: str
    Protocol: str
    ModelID: str

studyevent:
  represented_as: node
  preferred_id: oid
  label_in_input: StudyEvent
  is_a: biolink:ClinicalEntity
  properties:
    OID: str
    Name: str
    Type: str
    StudyOID: str
    ModelID: str

form:
  represented_as: node
  preferred_id: oid
  label_in_input: Form
  is_a: biolink:InformationContentEntity
  properties:
    OID: str
    Name: str
    StudyOID: str
    ModelID: str

itemgroup:
  represented_as: node
  preferred_id: oid
  label_in_input: ItemGroup
  is_a: biolink:InformationContentEntity
  properties:
    OID: str
    Name: str
    StudyOID: str
    ModelID: str

item:
  represented_as: node
  preferred_id: oid
  label_in_input: Item
  is_a: biolink:ClinicalFinding
  properties:
    OID: str
    Name: str
    DataType: str
    Question: str
    StudyOID: str
    ModelID: str

alias:
  represented_as: node
  preferred_id: [context, name]
  label_in_input: Alias
  is_a: biolink:InformationContentEntity
  properties:
    Context: str
    Name: str
    ItemOID: str
    StudyOID: str
    ModelID: str

measurementunit:
  represented_as: node
  preferred_id: oid
  label_in_input: MeasurementUnit
  is_a: biolink:Unit
  properties:
    OID: str
    Name: str
    Symbol: str

basicdefinitions:
  represented_as: node
  preferred_id: [studyoid, modelid]
  label_in_input: BasicDefinitions
  is_a: biolink:InformationContentEntity
  properties:
    StudyOID: str
    ModelID: str

rangecheck:
  represented_as: node
  preferred_id: [comparator, constraint, checkvalue]
  label_in_input: RangeCheck
  is_a: biolink:ClinicalFinding
  properties:
    Comparator: str
    Constraint: str
    CheckValue: str

codelist:
  represented_as: node
  preferred_id: oid
  label_in_input: CodeList
  is_a: biolink:InformationContentEntity
  properties:
    OID: str
    Name: str
    DataType: str
    StudyOID: str
    ModelID: str

codelistitem:
  represented_as: node
  preferred_id: codedvalue
  label_in_input: CodeListItem
  is_a: biolink:ConceptualEntity
  properties:
    CodedValue: str
    Decode: str

# Edge types extracted from ODM generators mapped to BioLink predicates
study_has_studyevent:
  represented_as: edge
  label_in_input: STUDY_HAS_STUDYEVENT
  source: study
  target: studyevent
  is_a: biolink:related_to

itemgroup_has_item:
  represented_as: edge
  label_in_input: ITEMGROUP_HAS_ITEM
  source: itemgroup
  target: item
  is_a: biolink:has_part

form_has_itemgroup:
  represented_as: edge
  label_in_input: FORM_HAS_ITEMGROUP
  source: form
  target: itemgroup
  is_a: biolink:has_part

studyevent_has_form:
  represented_as: edge
  label_in_input: STUDYEVENT_HAS_FORM
  source: studyevent
  target: form
  is_a: biolink:has_part

item_has_alias:
  represented_as: edge
  label_in_input: ITEM_HAS_ALIAS
  source: item
  target: alias
  is_a: biolink:same_as

itemgroup_has_alias:
  represented_as: edge
  label_in_input: ITEMGROUP_HAS_ALIAS
  source: itemgroup
  target: alias
  is_a: biolink:same_as

item_has_measurementunit:
  represented_as: edge
  label_in_input: ITEM_HAS_MEASUREMENTUNIT
  source: item
  target: measurementunit
  is_a: biolink:has_attribute

has_basedef:
  represented_as: edge
  label_in_input: HAS_BASEDEF
  source: study
  target: basicdefinitions
  is_a: biolink:has_part

basedef_has_measurementunit:
  represented_as: edge
  label_in_input: BASEDEF_HAS_MEASUREMENTUNIT
  source: basicdefinitions
  target: measurementunit
  is_a: biolink:has_part

item_has_rangecheck:
  represented_as: edge
  label_in_input: ITEM_HAS_RANGECHECK
  source: item
  target: rangecheck
  is_a: biolink:has_attribute

item_has_codelist:
  represented_as: edge
  label_in_input: ITEM_HAS_CODELIST
  source: item
  target: codelist
  is_a: biolink:has_attribute

codelist_has_codelistitem:
  represented_as: edge
  label_in_input: CODELIST_HAS_CODELISTITEM
  source: codelist
  target: codelistitem
  is_a: biolink:has_part

composite:
  represented_as: edge
  label_in_input: COMPOSITE
  source: alias
  target: alias
  is_a: biolink:related_to